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The version of rosdep that comes from the debian packages should be in /usr/bin not /usr/local/bin

I'd hazard a guess that you had a from source or from pip installation on your system at some point previously. During your upgrade you removed it, but there's still a reference to it on your path.

You might have an alias or other thing in your users' or root's .bashrc or other environment setup that needs to be cleaned up. Or you might have a redirection script somewhere that's out of date.